pappso::EnzymeProductInterface Class Reference

#include <enzymeproductinterface.h>

Inheritance diagram for pappso::EnzymeProductInterface:

Public Member Functions
virtual void	setPeptide (std::int8_t sequence_database_id, const ProteinSp &protein_sp, bool is_decoy, const PeptideStr &peptide, unsigned int start, bool is_nter, unsigned int missed_cleavage_number, bool semi_enzyme)=0
	function to give the products of a protein digestion by an enzyme

Detailed Description

Definition at line 33 of file enzymeproductinterface.h.

Member Function Documentation

setPeptide()

virtual void pappso::EnzymeProductInterface::setPeptide ( std::int8_t sequence_database_id, const ProteinSp & protein_sp, bool is_decoy, const PeptideStr & peptide, unsigned int start, bool is_nter, unsigned int missed_cleavage_number, bool semi_enzyme )

pure virtual

function to give the products of a protein digestion by an enzyme

Parameters

sequence_database_id	integer that references the sequence fatabase (file, stream, url...)
protein_sp	shared pointer on the protein that was digested
is_decoy	tell if the current protein is a decoy (true) or normal (false) protein
peptide	amino acid sequence of the peptide (string) produced by the digestion
start	the position of the first amino acid of the peptide in the original protein sequence. the first amino acid of the protein is at position 1.
is_nter	boolean to tell if the peptide is an Nter peptide (to allow Methionin Nter removal)
missed_cleavage_number	number of missed cleavage sites (that the enzyme has not cut) fot the product
semi_enzyme	boolean that tells if this peptide is the produce of a semi enzymatic lysis

Implemented in pappso::PeptideBuilder, pappso::PeptideMethioninRemove, pappso::PeptideModificatorPipeline, pappso::PeptideSemiEnzyme, and pappso::PeptideSizeFilter.

Referenced by pappso::Enzyme::sanityCheck().

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The documentation for this class was generated from the following file:

• pappsomspp/core/protein/enzymeproductinterface.h